chage's repositories
kraken2_classification
Snakemake workflow for metagenomic classification with Kraken2
AFPAP
AlphaFold-based Protein Analysis Pipeline
bbplot
Grammar of Graphics for base plot
benchdamic
Benchmark of differential abundance methods on microbiome data
ChIP-AP
An Integrated Analysis Pipeline for Unbiased ChIP seq Analysis
Cloud-Bind
Cloud-based Drug Binding Structure Prediction
gget
gget enables efficient querying of genomic databases, such as Ensembl, UniProt, NCBI, directly into a Python or terminal programming environment. It was designed to support genomic data analysis.
gorilla
Gorilla: An API store for LLMs
gpt_academic
为GPT/GLM等LLM大语言模型提供实用化交互接口，特别优化论文阅读/润色/写作体验，模块化设计，支持自定义快捷按钮&函数插件，支持Python和C++等项目剖析&自译解功能，PDF/LaTex论文翻译&总结功能，支持并行问询多种LLM模型，支持chatglm3等本地模型。接入通义千问, deepseekcoder, 讯飞星火, 文心一言, llama2, rwkv, claude2, moss等。
immunarch
🧬 Immunarch by ImmunoMind: R Package for Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires
Jupyter_Dock
Jupyter Dock is a set of Jupyter Notebooks for performing molecular docking protocols interactively, as well as visualizing, converting file formats and analyzing the results.
llama-gpt
A self-hosted, offline, ChatGPT-like chatbot. Powered by Llama 2. 100% private, with no data leaving your device.
making-it-rain
Cloud-based molecular simulations for everyone
MetabComparisonBinaryML
https://cimcb.github.io/MetabComparisonBinaryML/
MetabProjectionViz
https://cimcb.github.io/MetabProjectionViz/
neatseq-flow-modules
Shared Modules and Workflows for NeatSeq-Flow
nipype_tutorial
Learn Nipype with these tutorial notebooks - go here to see them online -->
Omix
A Multi-Omics Integration Pipeline
ordinalVS
High-dimensional variable selection for ordinal outcomes with error control
ParametrizANI
Dihedral Parametrization in the Cloud with TorchANI
PickyBinder
Docking Tool Benchmarking Workflow
plantain
Fast and accurate molecular docking with an AI pose scoring function
rstudio-themes
A collection of themes for RStudio
search_with_lepton
Building a quick conversation-based search demo with Lepton AI.
TOFU-MAaPO
Nextflow pipeline for the analysis of metagenomic short reads.
workshop_omics_integration
Workshop in omics integration and systems biology